GREMLIN Database
YPSC - Putative RNA methyltransferase YpsC
UniProt: P50840 Sequences:
Download Alignment
We filter this alignment to remove sites that have many gaps before running GREMLIN.

Date: 2015_01
Length: 385 (369)
Sequences: 2168 (1440)
Seq/√Len: 74.9

GREMLIN Results:

Legend: The darker and larger the blue dots, the higher coevolution strength.

Residue pairs sorted by coevolution strength:
i j Sco Prob
83_R120_K6.1231.00
206_A258_A4.5951.00
273_A284_F4.3881.00
86_I90_G3.6291.00
63_A80_I3.4751.00
8_A38_F3.4641.00
215_N247_K3.2781.00
71_D75_E3.1931.00
273_A278_L3.1661.00
64_S149_Q3.1181.00
299_G334_W3.0881.00
113_V143_I2.9481.00
7_I35_K2.8551.00
81_N84_S2.8411.00
38_F48_A2.8241.00
117_I141_V2.8131.00
119_E122_K2.7681.00
8_A58_I2.7611.00
41_D44_A2.7011.00
171_G265_M2.6881.00
40_G44_A2.5611.00
175_I339_L2.5571.00
183_L368_Y2.4401.00
49_N156_S2.3831.00
78_K123_L2.3701.00
65_F76_K2.3421.00
22_V27_Y2.3381.00
27_Y44_A2.3291.00
206_A256_I2.3231.00
74_F119_E2.2611.00
183_L205_I2.2191.00
87_P90_G2.2141.00
185_Q212_I2.2101.00
356_K367_D2.2031.00
77_T113_V2.2031.00
77_T152_I2.1711.00
96_G109_C2.1501.00
43_L239_K2.1441.00
10_A18_V2.1301.00
288_Q291_D2.1131.00
69_T72_E2.1101.00
81_N120_K2.1031.00
266_V284_F2.0931.00
143_I150_A2.0861.00
184_V187_T2.0431.00
214_Q281_L2.0311.00
66_K149_Q2.0171.00
196_V292_F2.0131.00
145_L150_A1.9261.00
24_D185_Q1.8601.00
6_L45_I1.8601.00
266_V286_Q1.8391.00
61_Q64_S1.8281.00
196_V259_S1.7791.00
195_F302_V1.7641.00
187_T300_V1.7551.00
17_V54_T1.7531.00
47_R243_E1.7511.00
54_T185_Q1.7231.00
328_F336_V1.7061.00
159_T163_K1.6841.00
240_A243_E1.6741.00
346_E369_Y1.6631.00
104_A107_P1.6491.00
113_V152_I1.6411.00
50_L240_A1.6231.00
269_A284_F1.6131.00
324_M328_F1.6101.00
95_I140_K1.6000.99
313_E316_A1.5980.99
273_A282_I1.5940.99
263_H286_Q1.5810.99
19_A23_R1.5700.99
255_T283_Q1.5480.99
46_C236_L1.5420.99
91_K138_E1.5350.99
8_A48_A1.5330.99
103_L109_C1.5290.99
48_A58_I1.5230.99
343_E365_K1.5150.99
187_T337_Y1.4910.99
68_K72_E1.4870.99
5_T39_E1.4750.99
11_P178_T1.4640.99
184_V205_I1.4640.99
60_V156_S1.4530.99
18_V55_A1.4470.99
265_M268_I1.4410.99
226_S237_W1.4370.99
274_E279_G1.4320.99
168_V275_E1.4300.99
5_T61_Q1.4270.99
51_W244_V1.4250.99
337_Y370_Q1.4160.99
45_I156_S1.4140.99
61_Q151_L1.4090.99
198_P303_G1.3970.99
289_V324_M1.3970.99
336_V349_Y1.3880.99
259_S287_M1.3860.98
258_A269_A1.3690.98
8_A22_V1.3690.98
195_F206_A1.3650.98
354_T372_W1.3630.98
86_I121_L1.3610.98
43_L240_A1.3530.98
206_A284_F1.3400.98
59_K153_T1.3280.98
78_K119_E1.3260.98
143_I152_I1.3220.98
48_A52_L1.3180.98
360_F365_K1.3160.98
71_D112_I1.3100.98
242_L246_E1.3090.98
96_G110_Q1.2810.97
80_I152_I1.2770.97
195_F205_I1.2740.97
74_F116_A1.2740.97
259_S292_F1.2720.97
183_L302_V1.2700.97
6_L40_G1.2570.97
290_K323_E1.2530.97
139_Y231_W1.2390.97
303_G338_M1.2330.97
57_R155_D1.2280.97
183_L359_L1.2160.97
278_L284_F1.2130.96
49_N157_S1.1940.96
86_I139_Y1.1880.96
199_F303_G1.1690.96
318_E348_A1.1670.96
307_Y361_N1.1570.95
104_A108_D1.1560.95
220_F248_A1.1550.95
217_A244_V1.1510.95
189_W195_F1.1490.95
109_C143_I1.1430.95
83_R124_Q1.1390.95
76_K150_A1.1370.95
61_Q153_T1.1350.95
303_G324_M1.1310.95
37_I61_Q1.1310.95
255_T296_L1.1220.95
51_W217_A1.1210.95
171_G268_I1.1160.94
43_L47_R1.1070.94
92_F118_V1.1050.94
14_I182_A1.0940.94
206_A282_I1.0850.93
18_V54_T1.0840.93
46_C232_I1.0830.93
65_F150_A1.0810.93
267_Q270_K1.0770.93
46_C240_A1.0710.93
211_L278_L1.0700.93
233_G236_L1.0640.93
98_S101_S1.0630.93
19_A31_V1.0480.92
107_P111_R1.0470.92
234_K238_N1.0450.92
114_K118_V1.0440.92
184_V302_V1.0260.91
213_G254_L1.0240.91
271_E274_E1.0200.91
184_V195_F1.0190.91
56_D160_G1.0190.91
169_D271_E1.0180.91
312_G316_A1.0140.91
207_I276_A1.0130.91
157_S225_V1.0120.91
360_F363_F1.0110.91
195_F209_A1.0080.91
97_K144_S0.9980.90
8_A55_A0.9980.90
108_D111_R0.9920.90
93_P134_E0.9910.90
237_W244_V0.9900.90
325_G350_G0.9860.90
321_Y340_T0.9830.90
70_F108_D0.9810.90
226_S232_I0.9770.89
16_A20_K0.9760.89
98_S106_V0.9740.89
142_E153_T0.9740.89
345_F349_Y0.9740.89
78_K120_K0.9720.89
45_I60_V0.9690.89
6_L38_F0.9690.89
155_D158_G0.9670.89
289_V327_A0.9650.89
298_F333_T0.9620.89
22_V48_A0.9590.88
80_I120_K0.9580.88
106_V109_C0.9500.88
20_K23_R0.9490.88
52_L55_A0.9460.88
227_E241_R0.9460.88
95_I142_E0.9440.88
56_D176_K0.9420.88
133_E137_A0.9370.87
249_N252_Q0.9360.87
343_E369_Y0.9360.87
87_P230_E0.9350.87
206_A273_A0.9280.87
18_V185_Q0.9260.87
68_K102_T0.9230.86
118_V132_I0.9200.86
195_F256_I0.9200.86
353_A356_K0.9190.86
66_K148_D0.9190.86
160_G176_K0.9150.86
67_A72_E0.9130.86
88_E127_K0.9080.86
17_V182_A0.9080.86
223_D227_E0.9050.85
38_F58_I0.9040.85
29_C36_V0.9000.85
89_N135_T0.8980.85
186_L359_L0.8850.84
75_E78_K0.8810.84
226_S241_R0.8750.83
193_R300_V0.8750.83
317_V321_Y0.8740.83
324_M336_V0.8730.83
271_E275_E0.8700.83
94_V113_V0.8680.83
211_L216_I0.8660.83
340_T346_E0.8620.82
96_G106_V0.8610.82
92_F139_Y0.8590.82
326_Q330_P0.8530.82
77_T94_V0.8520.82
92_F121_L0.8490.81
335_S370_Q0.8470.81
105_S108_D0.8470.81
19_A29_C0.8460.81
218_P244_V0.8460.81
358_K367_D0.8430.81
138_E225_V0.8420.81
141_V152_I0.8380.81
42_A231_W0.8350.80
99_V146_L0.8340.80
217_A220_F0.8330.80
323_E326_Q0.8320.80
89_N127_K0.8320.80
23_R29_C0.8260.80
20_K24_D0.8260.80
63_A81_N0.8240.79
67_A150_A0.8210.79
165_G177_E0.8200.79
5_T37_I0.8190.79
207_I278_L0.8170.79
210_A276_A0.8130.79
196_V257_F0.8100.78
76_K79_A0.8090.78
210_A278_L0.8070.78
207_I282_I0.8060.78
193_R335_S0.8010.78
17_V186_L0.7990.77
216_I220_F0.7980.77
361_N366_T0.7960.77
20_K188_N0.7940.77
220_F245_E0.7920.77
82_W117_I0.7910.77
98_S109_C0.7880.76
166_Y207_I0.7860.76
170_Q268_I0.7850.76
170_Q265_M0.7820.76
62_V85_F0.7810.76
118_V122_K0.7780.75
30_K37_I0.7750.75
337_Y368_Y0.7750.75
317_V345_F0.7750.75
197_D306_P0.7740.75
343_E356_K0.7630.74
318_E342_N0.7620.74
83_R121_L0.7590.74
115_K119_E0.7580.74
314_K318_E0.7550.73
184_V300_V0.7530.73
288_Q323_E0.7530.73
184_V206_A0.7490.73
6_L27_Y0.7490.73
214_Q252_Q0.7460.72
214_Q254_L0.7450.72
324_M349_Y0.7450.72
10_A160_G0.7440.72
301_I328_F0.7430.72
227_E232_I0.7420.72
357_R370_Q0.7410.72
202_S304_N0.7380.72
194_P299_G0.7300.71
266_V269_A0.7290.71
128_A131_W0.7280.71
338_M371_Y0.7260.70
6_L60_V0.7240.70
186_L357_R0.7200.70
156_S229_W0.7200.70
101_S148_D0.7170.69
259_S283_Q0.7170.69
92_F141_V0.7150.69
17_V185_Q0.7150.69
312_G345_F0.7140.69
294_T331_L0.7140.69
140_K225_V0.7130.69
267_Q271_E0.7100.69
174_P177_E0.7090.69
346_E349_Y0.7090.69
17_V20_K0.7080.68
169_D268_I0.7070.68
109_C145_L0.7050.68
258_A282_I0.7050.68
224_F227_E0.7000.68
356_K365_K0.6990.67
214_Q278_L0.6980.67
115_K121_L0.6980.67
85_F231_W0.6980.67
171_G269_A0.6970.67
328_F331_L0.6960.67
191_P213_G0.6950.67
90_G139_Y0.6910.67
32_D37_I0.6900.66
196_V294_T0.6880.66
340_T369_Y0.6860.66
193_R298_F0.6860.66
194_P255_T0.6850.66
23_R28_E0.6830.66
183_L339_L0.6800.65
214_Q280_D0.6790.65
22_V44_A0.6780.65
267_Q285_K0.6770.65
73_L103_L0.6760.65
88_E121_L0.6750.65
339_L366_T0.6740.65
202_S272_N0.6730.64
324_M338_M0.6720.64
289_V309_E0.6670.64
311_L326_Q0.6670.64
265_M269_A0.6630.63
225_V228_D0.6580.63
184_V213_G0.6580.63
20_K185_Q0.6580.63
174_P304_N0.6570.63
62_V80_I0.6560.63
172_G264_R0.6540.62
44_A48_A0.6540.62
50_L237_W0.6540.62
239_K279_G0.6540.62
248_A278_L0.6520.62
307_Y364_I0.6520.62
25_L182_A0.6500.62
169_D275_E0.6500.62
120_K124_Q0.6500.62
111_R115_K0.6490.62
72_E76_K0.6490.62
78_K81_N0.6490.62
132_I136_G0.6480.62
171_G364_I0.6480.62
43_L236_L0.6450.61
123_L126_G0.6450.61
106_V229_W0.6440.61
270_K285_K0.6440.61
114_K134_E0.6440.61
52_L58_I0.6390.60
100_K104_A0.6380.60
238_N241_R0.6380.60
32_D35_K0.6360.60
236_L239_K0.6350.60
122_K131_W0.6330.60
139_Y229_W0.6330.60
162_H178_T0.6330.60
359_L368_Y0.6320.60
27_Y45_I0.6310.60
96_G143_I0.6300.59
177_E204_T0.6290.59
190_T193_R0.6270.59
283_Q287_M0.6270.59
55_A178_T0.6270.59
42_A232_I0.6270.59
53_R181_A0.6260.59
241_R245_E0.6250.59
21_E25_L0.6250.59
80_I113_V0.6230.59
317_V340_T0.6230.59
249_N253_P0.6210.58
292_F331_L0.6210.58
189_W209_A0.6200.58
270_K279_G0.6200.58
301_I336_V0.6200.58
205_I284_F0.6180.58
243_E247_K0.6170.58
4_Y39_E0.6150.58
261_I288_Q0.6130.57
328_F349_Y0.6130.57
206_A212_I0.6130.57
179_L309_E0.6110.57
239_K243_E0.6110.57
329_E351_R0.6100.57
12_M360_F0.6100.57
112_I115_K0.6090.57
45_I49_N0.6070.57
7_I37_I0.6060.56
189_W213_G0.6060.56
82_W141_V0.6050.56
210_A256_I0.6020.56
77_T143_I0.6000.56
115_K118_V0.6000.56
55_A58_I0.6000.56
64_S151_L0.5970.55
200_C258_A0.5960.55
119_E128_A0.5930.55
361_N364_I0.5930.55
42_A236_L0.5910.55
16_A31_V0.5910.55
105_S110_Q0.5900.54
12_M33_N0.5900.54
322_K326_Q0.5900.54
10_A58_I0.5890.54
266_V270_K0.5870.54
360_F364_I0.5870.54
314_K342_N0.5870.54
346_E371_Y0.5870.54
42_A46_C0.5870.54
111_R119_E0.5860.54
60_V231_W0.5850.54
140_K160_G0.5830.54
97_K142_E0.5820.53
139_Y266_V0.5820.53
163_K262_D0.5820.53
86_I117_I0.5810.53
7_I11_P0.5800.53
62_V152_I0.5790.53
8_A27_Y0.5780.53
40_G48_A0.5770.53
46_C237_W0.5760.53
327_A330_P0.5750.53
339_L348_A0.5740.52
306_P310_R0.5730.52
173_A310_R0.5690.52
69_T104_A0.5690.52
216_I248_A0.5680.52
56_D178_T0.5680.52
189_W300_V0.5670.52
317_V342_N0.5660.51
7_I153_T0.5660.51
341_S355_K0.5660.51
11_P171_G0.5650.51
177_E202_S0.5640.51
189_W299_G0.5620.51
316_A326_Q0.5620.51
335_S373_S0.5590.51
74_F115_K0.5590.51
259_S285_K0.5570.50
7_I61_Q0.5570.50
4_Y40_G0.5570.50
182_A186_L0.5570.50
320_M324_M0.5560.50
285_K288_Q0.5560.50
47_R246_E0.5560.50
157_S226_S0.5550.50
75_E79_A0.5550.50
192_D253_P0.5530.50
31_V207_I0.5520.50
292_F327_A0.5520.50
57_R217_A0.5520.50
93_P140_K0.5520.50
27_Y41_D0.5510.50
283_Q297_E0.5510.50
12_M34_G0.5480.49
312_G317_V0.5460.49
169_D264_R0.5450.49
62_V154_L0.5440.49
73_L150_A0.5430.49
117_I120_K0.5420.48
292_F301_I0.5420.48
102_T148_D0.5420.48
9_T51_W0.5410.48
164_R208_E0.5400.48
289_V292_F0.5390.48
107_P110_Q0.5390.48
47_R51_W0.5390.48
108_D115_K0.5380.48
144_S176_K0.5370.48
339_L342_N0.5370.48
90_G230_E0.5370.48
220_F244_V0.5360.48
302_V368_Y0.5360.48
183_L199_F0.5360.48
51_W247_K0.5360.48
29_C39_E0.5350.48
340_T349_Y0.5350.48
9_T56_D0.5350.48
27_Y48_A0.5340.47
5_T302_V0.5330.47
74_F112_I0.5320.47
73_L109_C0.5320.47
194_P296_L0.5310.47
73_L113_V0.5310.47
49_N226_S0.5310.47
77_T109_C0.5310.47
25_L54_T0.5300.47
173_A204_T0.5300.47
179_L361_N0.5290.47
203_G273_A0.5280.47
42_A60_V0.5280.47
201_G306_P0.5270.47
10_A157_S0.5260.46
257_F283_Q0.5260.46
74_F111_R0.5260.46
278_L281_L0.5260.46
127_K131_W0.5250.46
283_Q286_Q0.5240.46
234_K242_L0.5230.46
230_E233_G0.5220.46
293_T330_P0.5220.46
286_Q291_D0.5220.46
300_V337_Y0.5210.46
311_L352_K0.5210.46
356_K369_Y0.5200.46
166_Y211_L0.5200.46
204_T310_R0.5190.46
219_G244_V0.5190.46
119_E131_W0.5180.45
71_D78_K0.5180.45
35_K144_S0.5170.45
27_Y38_F0.5170.45
183_L341_S0.5170.45
199_F320_M0.5160.45
144_S153_T0.5150.45
11_P365_K0.5150.45
217_A248_A0.5140.45
319_Q322_K0.5140.45
174_P202_S0.5130.45
96_G142_E0.5130.45
7_I12_M0.5130.45
239_K255_T0.5120.45
204_T304_N0.5120.45
162_H170_Q0.5100.44
194_P297_E0.5090.44
177_E304_N0.5080.44
64_S94_V0.5070.44
152_I241_R0.5060.44
236_L240_A0.5060.44
109_C152_I0.5060.44
108_D131_W0.5060.44
344_N348_A0.5050.44
227_E234_K0.5030.44
173_A304_N0.5030.44
143_I153_T0.5030.44
49_N158_G0.5020.43
67_A76_K0.5020.43
289_V323_E0.5020.43
53_R219_G0.5010.43
173_A180_A0.5000.43
Legend: The i and j are positions as given in the UniProt sequence. Only predictions with Prob ≥ 0.7 are listed. For all 3L/2 predictions, click on one of the links below.

Sco = ((raw_sco - min_sco)/(avg_sco - min_sco))/2 + 0.5
Prob = P(contact | Sco, seq80/√len)
seq80 = effective number of sequences, after reducing redundancy to 80% identity

HHsearch Results:
Legend: GREMLIN results (Prob ≥ 0.7) overlaid on top PDB hits. The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on the top 10 (or top 20 if e-value < 1E-20) HHsearch results which uses the overall probability and per-site alignment prob. Inter oligomeric contacts in the pdb are in shades of red.
PDB Chains Cov % HHΔ  
3lduA 1 0.974 100 0.227 Contact Map
3ldgA 1 0.9688 100 0.23 Contact Map
3k0bA 1 0.9584 100 0.24 Contact Map
3v97A 1 0.9662 100 0.245 Contact Map
3tm4A 1 0.8468 100 0.47 Contact Map
3tmaA 2 0.8286 100 0.547 Contact Map
3s1sA 1 0.8 99.8 0.838 Contact Map
2r6zA 2 0.5558 99.5 0.867 Contact Map
1o9gA 1 0.5065 99.5 0.87 Contact Map
2okcA 1 0.787 99.5 0.873 Contact Map

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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